run_metadata: 69523
This data as json
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| 69523 | SRR18788799 | SRX14888140 | SRS12641605 | SRP370761 | PRJNA827490 | Transcriptome of female zebrafish brains under cold stress | PRJNA827490 | Whole Genome Sequencing | The fecundity of zebrafish was examined post exposure to different cold temperatures at 19.5 degrees Celsius 19 degrees Celsius 18.5 degrees Celsius and 18 degrees Celsius. Temperature at 19 degrees Celsius showed no significant influence on the fecundity of zebrafish but temperatures at 18.5 degrees Celsius and 18 degrees Celsius significantly blocked the spawning of females. Then the brains of fish under cold stresses at different temperatures were collected for high throughput RNA seq assays. | zebrafish brain exposed to temperature at xxx.5 ℃ | 19.5 C#1 | strain:AB line|age:not collected|dev stage:adult|sex:female|tissue:brain|replicate:replicate = biological replicate 1|BioSampleModel:Model organism or animal | zebrafish brain exposed to temperature at xxx.5 | 19.5 C#1 | 19.5 C#1 | One microgram of total RNA of each sample was used as the initial material for library construction. DNase I RNase free from Promega was used to eliminate genomic DNA contamination and 1 g DNase I treated total RNA of each sample was used as the beginning material. The NEBNext rRNA Depletion Kit was used for rRNA depletion. post that the RNAs were purified by using the Agencourt RNAClean XP Beads from Beckman Coulter. Subsequently RNA fragmentation first strand and second strand cDNA synthesis and double stranded cDNA end repair were performed using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina. Double strand cDNAs were purified using the Agencourt AMPure XP from Beckman Coulter and ligated to adaptors of the NEBNext Multiplex Oligos for Illumina. Finally the Q5 Hot Start HiFi PCR Master Mix NEB was used for PCR enrichment of the adaptor ligated DNA. Concentration and quality of the libraries were measured by using the Agilent High Sensitivity DNA Kit and a Bioanalyzer 2100 from Agilent Technologies. | RNA-Seq | TRANSCRIPTOMIC | PCR | PAIRED | ILLUMINA | NextSeq 500 | SRP370761 | 13_R1.fastq.gz 13_R2.fastq.gz | fastq fastq | 4080384883.0 | 24618817.0 | 13 R1.fastq.gz | 0:77.97 1:87.77 | A:993781329;C:821953352;G:935058139;T:856264709;N:473327354 | 77 | 87 | 993781329 | 821953352 | 935058139 | 856264709 | 473327354 | SRX14888140 | SRS12641605 | SRA1405741 | Chinese Academy of Sciences|Institute of Hydrobiology | Chinese Academy of Sciences | 2 | 0.95194 | 0.95013 | 0.04684 | 0.04658 | 0.77078 | 0.80306 | 0.52964 | 0.5267 | 35 | 35 | B | B | biological fallback assumption | illumina | nextseq | unknown | random_priming | nebnext | bulk | unknown | unknown | China | 2022-04-18 | Adult | Adult | Brain | Nervous System |